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**Operating system**
Linux
**Package name**
IsoSeq3 version 3.3.0
**Describe the bug**
When running isoseq3 cluster with data from 8 2M sequel2 SMRT cells it consistently results in segmentat…
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Hello!
I have tried to run the sqanti_qc2.py command with the "all_samples.chained.gtf", annotation and genome fasta files. The program stopped with the next error in the end:
`FileNotFoundError…
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Hi @yangao07
Is there any chance that you will be having a version of lr2mats which only requires long-read data as input and not the supporting short reads?
Thanks
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I'm leaving these comments as an 'issue' in response to the pdf sent out on 17/04/2020 (commit `3704689a2b294ee9b2ac67c441362d6820092cf0`)--it's a more detailed response than what we talked about at l…
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I've installed the latest funannotate docker image (changed manually the path to 1.6.0 in the installation instructions).
Am running the following command to assemble a genome using pacbio iso-seq a…
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I've done SQANTI2 on PacBio Sequal high-quality collapsed isoforms from Iso-Seq + Tofu. I found more than 50% of the isoforms are classified as "antisense" and "NIC". I used GMAP to map against Ensemb…
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Good afternoon!
I have some 5’-cap selected Iso-Seq data. I aligned with gmap (and still gonna alignment with desalt) and after used tama collapse. However, occurs a key error 'UnnamedSample_HQ_tr…
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I recently generated alignments for >40M ISO-Seq reads using minimap2, and looking at the entire dataset, I see that the shortest exon aligned is 24 nt. I do expect exons that are shorter than that an…
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Hi @Magdoll ,
One family finding command from generated batch commands in my project could not get through in a rather long time (roughly two days). It stuck at process_kmer_to_graph phase and took a…
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Hello,
I had an error (subprocess.CalledProcessError) when I ran the SQANTI2 (v3.5.1). I attached the log at below. Could you please give me an advice how to resolve it? Thank you!
Taehee
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tay45 updated
5 years ago